Variant report

Variant	rs10077060
Chromosome Location	chr5:178214370-178214371
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10038743	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs10039698	0.91[AFR][1000 genomes]
rs10041558	0.89[AFR][1000 genomes]
rs10041561	0.84[AFR][1000 genomes]
rs10044101	0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs10070226	0.85[AFR][1000 genomes]
rs10073136	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10455073	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10455074	0.89[AFR][1000 genomes]
rs10455075	0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs10455076	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs56394232	0.88[AFR][1000 genomes]
rs57871332	0.89[AFR][1000 genomes]
rs60286346	0.84[AFR][1000 genomes]
rs62393896	0.84[AFR][1000 genomes]
rs7444300	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9329054	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs9329055	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031666	chr5:177988601-178236068	Bivalent/Poised TSS Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031206	chr5:178149292-178283614	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537973	chr5:178149292-178283614	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv462573	chr5:178180299-178241495	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv600452	chr5:178180299-178241495	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178166600-178224000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr5:178206400-178217600	Weak transcription	Gastric	stomach
3	chr5:178210600-178217400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr5:178212800-178214600	Enhancers	Osteobl	bone
5	chr5:178213000-178215200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:178213200-178215000	Enhancers	K562	blood
7	chr5:178213200-178215800	Enhancers	Placenta Amnion	Placenta Amnion
8	chr5:178213200-178215800	Enhancers	Stomach Mucosa	stomach
9	chr5:178213400-178215200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr5:178213400-178215200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr5:178213600-178214600	Enhancers	Fetal Intestine Small	intestine
12	chr5:178213800-178214800	Weak transcription	Esophagus	oesophagus
13	chr5:178213800-178215200	Enhancers	Hela-S3	cervix
14	chr5:178213800-178216000	Enhancers	Placenta	Placenta
15	chr5:178214000-178214400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr5:178214000-178214600	Enhancers	Fetal Intestine Large	intestine
17	chr5:178214000-178214800	Enhancers	Fetal Kidney	kidney
18	chr5:178214000-178214800	Enhancers	HepG2	liver
19	chr5:178214200-178214600	Active TSS	A549	lung

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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